Functional divergence and origin of the DAG-like gene family in plants.
Functional divergence and origin of the DAG-like gene family in plants.
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植物DAG样基因家族的功能分化和起源
DOI：
10.1038/s41598-017-05961-2
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发表时间：
2017-07-18
影响因子：
4.6
通讯作者：
Qiu F
中科院分区：
文献类型：
--
作者：
Luo M;Cai M;Zhang J;Li Y;Zhang R;Song W;Zhang K;Xiao H;Yue B;Zheng Y;Zhao Y;Zhao J;Qiu F
核编码的DAG样（DAL）基因家族在拟南芥细胞器C-to-U RNA编辑中起着关键作用。然而，DAL基因的起源，多样性和功能分歧仍然不清楚。在这里，我们分析了不同的植物物种的基因组，发现：DAL基因是特定的种子植物，所有的DAL基因共享一个保守的基因结构和蛋白质的相似性，在蕨类植物和苔藓中发现的枯草杆菌蛋白酶基因的抑制剂I9域，这表明DAL基因可能是由I9的前蛋白酶通过外显子改组。基于系统发育推断，DAL基因可分为5个亚科，每个亚科由不同物种的Pupellae直系同源基因和Paralogous基因组成，表明所有DAL基因在早期种子植物中起源于一个共同祖先。在10个成对比较中的6个中观察到显著的I型功能分歧，表明转移功能限制有助于DAL基因的进化。这一推论得到了以下发现的支持：亚家族之间功能上不同的氨基酸主要位于DAL结构域，这是RNA编辑体的关键部分。总体而言，这些发现揭示了DAL基因在种子植物中的起源，并概述了参与RNA编辑体复杂性的功能重要残基。
The nuclear-encoded DAG-like (DAL) gene family plays critical roles in organelle C-to-U RNA editing in Arabidopsis thaliana. However, the origin, diversification and functional divergence of DAL genes remain unclear. Here, we analyzed the genomes of diverse plant species and found that: DAL genes are specific to spermatophytes, all DAL genes share a conserved gene structure and protein similarity with the inhibitor I9 domain of subtilisin genes found in ferns and mosses, suggesting that DAL genes likely arose from I9-containing proproteases via exon shuffling. Based on phylogenetic inference, DAL genes can be divided into five subfamilies, each composed of putatively orthologous and paralogous genes from different species, suggesting that all DAL genes originated from a common ancestor in early seed plants. Significant type I functional divergence was observed in 6 of 10 pairwise comparisons, indicating that shifting functional constraints have contributed to the evolution of DAL genes. This inference is supported by the finding that functionally divergent amino acids between subfamilies are predominantly located in the DAL domain, a critical part of the RNA editosome. Overall, these findings shed light on the origin of DAL genes in spermatophytes and outline functionally important residues involved in the complexity of the RNA editosome.
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影响因子：
11.4
作者：
Chaudhuri, S;Maliga, P
通讯作者：
Maliga, P
影响因子：
14.9
作者：
Dash S;Van Hemert J;Hong L;Wise RP;Dickerson JA
通讯作者：
Dickerson JA
DOI：
10.1073/pnas.94.23.12722
发表时间：
1997-11-11
影响因子：
11.1
作者：
Babiychuk, E;Fuanghthong, M;Kushnir, S
通讯作者：
Kushnir, S
影响因子：
4.8
作者：
LI, YY;HU, ZX;INOUYE, M
通讯作者：
INOUYE, M
影响因子：
14.9
作者：
Grewe F;Viehoever P;Weisshaar B;Knoop V
通讯作者：
Knoop V